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PDBsum entry 2a2j
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Oxidoreductase
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PDB id
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2a2j
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References listed in PDB file
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Key reference
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Title
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Crystal structure of a putative pyridoxine 5'-Phosphate oxidase (rv2607) from mycobacterium tuberculosis.
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Authors
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J.D.Pédelacq,
B.S.Rho,
C.Y.Kim,
G.S.Waldo,
T.P.Lekin,
B.W.Segelke,
B.Rupp,
L.W.Hung,
S.I.Kim,
T.C.Terwilliger.
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Ref.
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Proteins, 2006,
62,
563-569.
[DOI no: ]
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PubMed id
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Abstract
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The three-dimensional structure of Rv2607, a putative pyridoxine 5'-phosphate
oxidase (PNPOx) from Mycobacterium tuberculosis, has been determined by X-ray
crystallography to 2.5 A resolution. Rv2607 has a core domain similar to known
PNPOx structures with a flavin mononucleotide (FMN) cofactor. Electron density
for two FMN at the dimer interface is weak despite the bright yellow color of
the protein solution and crystal. The shape and size of the putative binding
pocket is markedly different from that of members of the PNPOx family, which may
indicate some significant changes in the FMN binding mode of this protein
relative to members of the family.
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Figure 1.
Figure 1. Representation of the three-dimensional structure of
(A) Rv2607 and (B) the E. coli oxidase (PDB code: 1G79). (C)
Structure-based sequence alignment.  strands
are shown as arrows and  helices
as coils. Sequence homologies are highlighted in red; sequence
identities are shown as white letters on a red background.
Residues important for FMN binding, PLP binding, and both, are
indicated using yellow, blue, and green triangles, respectively.
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Figure 4.
Figure 4. Stereo view of the active site. (A) Stereo diagrams
of 2Fo-Fc map at 1  level
(blue) and Fo-Fc map at 3 level
(red). Only the residues within 5 Å of the FMN in Rv2607
are shown in ball-and-stick representation. (B) Superimposition
of Rv2607 (yellow) and the E. coli oxidase (pink) with FMN (PDB
code: 1G79). (C) Superimposition of Rv2607 (yellow) and the E.
coli oxidase (pink) in complex with PLP (PDB code: 1G79).
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The above figures are
reprinted
by permission from John Wiley & Sons, Inc.:
Proteins
(2006,
62,
563-569)
copyright 2006.
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